(5 nodes) (2019) Peripheral Macrophages Promote Tissue Regeneration in Zebrafish by Fine-Tuning the Inflammatory Response. network (Latimeria chalumnae)

Nodes:

Network nodes represent proteins

splice isoforms or post-translational modifications are collapsed, i.e. each node represents all the proteins produced by a single, protein-coding gene locus.

Node Color

colored nodes:
query proteins and first shell of interactors

white nodes:
second shell of interactors

Node Content

empty nodes:
proteins of unknown 3D structure

filled nodes:
a 3D structure is known or predicted

Edges:

Edges represent protein-protein associations

associations are meant to be specific and meaningful, i.e. proteins jointly contribute to a shared function; this does not necessarily mean they are physically binding to each other.

Known Interactions

from curated databases

experimentally determined

Predicted Interactions

gene neighborhood

gene fusions

gene co-occurrence

Others

textmining

co-expression

protein homology

Your Input:
	IL10	Interleukin 10. (185 aa)
	LOC102347787	Sushi domain-containing protein. (742 aa)
	LOC102348047	Sushi domain-containing protein. (802 aa)
	H3BD64_LATCH	Xenotropic and polytropic retrovirus receptor 1b. (669 aa)
	CSF1R	Colony stimulating factor 1 receptor. (968 aa)

Your Current Organism:

Latimeria chalumnae

NCBI taxonomy Id: 7897
Other names: L. chalumnae, coelacanth

Send network to Cytoscape

Export your current network:

... as a bitmap image:

download

file format is 'PNG': portable network graphic

... as a high-resolution bitmap:

download

same PNG format, but at higher resolution

... as a vector graphic:

download

SVG: scalable vector graphic - can be opened and edited in Illustrator, CorelDraw, Dia, etc

... as short tabular text output:

download

TSV: tab separated values - can be opened in Excel and Cytoscape (lists only one-way edges: A-B)

... as tabular text output:

download

TSV: tab separated values - can be opened in Excel (lists reciprocal edges: A-B,B-A)

... as an XML summary:

download

structured XML interaction data, according to the 'PSI-MI' data standard

... protein node degrees:

download

node degree of proteins in your network (given the current score cut-off)

... network coordinates:

download

a flat-file format describing the coordinates and colors of nodes in the network

... protein sequences:

download

MFA: multi-fasta format - containing the aminoacid sequences in the network

... protein annotations:

download

a tab-delimited file describing the names, domains and descriptions of proteins in your network

... functional annotations:

download

a tab-delimited file containing all known functional terms of protiens in your network

Browse interactions in tabular form:

node1	node2	node1 accession	node2 accession	node1 annotation	node2 annotation	score
CSF1R	IL10	ENSLACP00000016266	ENSLACP00000005382	Colony stimulating factor 1 receptor.	Interleukin 10.	0.428
IL10	CSF1R	ENSLACP00000005382	ENSLACP00000016266	Interleukin 10.	Colony stimulating factor 1 receptor.	0.428
IL10	LOC102347787	ENSLACP00000005382	ENSLACP00000019381	Interleukin 10.	Sushi domain-containing protein.	0.474
IL10	LOC102348047	ENSLACP00000005382	ENSLACP00000019602	Interleukin 10.	Sushi domain-containing protein.	0.561
LOC102347787	IL10	ENSLACP00000019381	ENSLACP00000005382	Sushi domain-containing protein.	Interleukin 10.	0.474
LOC102347787	LOC102348047	ENSLACP00000019381	ENSLACP00000019602	Sushi domain-containing protein.	Sushi domain-containing protein.	0.901
LOC102348047	IL10	ENSLACP00000019602	ENSLACP00000005382	Sushi domain-containing protein.	Interleukin 10.	0.561
LOC102348047	LOC102347787	ENSLACP00000019602	ENSLACP00000019381	Sushi domain-containing protein.	Sushi domain-containing protein.	0.901